Important! Template update for nf-core/tools v3.1.0 #227
9 tests run, 0 passed, 0 skipped, 9 failed.
Annotations
Check failure on line 1 in Test pipeline
github-actions / JUnit Test Report
Test pipeline.Run with profile test | --aligner bwa-mem2 --save_reference | skip QC/recal/md
Assertion failed:
2 of 2 assertions failed
Raw output
Nextflow stdout:
N E X T F L O W ~ version 24.04.2
ERROR ~ Unknown config attribute `prov.formats.bco.trace_timestamp` -- check config file: /home/runner/work/sarek/sarek/nextflow.config
-- Check '/home/runner/work/sarek/sarek/~/tests/ee21062530c3ea3411680eb120206702/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.2 is available - Please consider updating your version to it
Check failure on line 1 in Test pipeline
github-actions / JUnit Test Report
Test pipeline.Run with profile test,alignment_to_fastq
Assertion failed:
2 of 2 assertions failed
Raw output
Nextflow stdout:
N E X T F L O W ~ version 24.04.2
ERROR ~ Unknown config attribute `prov.formats.bco.trace_timestamp` -- check config file: /home/runner/work/sarek/sarek/nextflow.config
-- Check '/home/runner/work/sarek/sarek/~/tests/18f11c9ff2ead00b3445cec3fe0c8509/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.2 is available - Please consider updating your version to it
Check failure on line 1 in Test pipeline
github-actions / JUnit Test Report
Test pipeline.Fails with profile test | --tools snpeff --snpeff_db na --build_only_index
Assertion failed:
1 of 2 assertions failed
Raw output
Nextflow stdout:
N E X T F L O W ~ version 24.04.2
ERROR ~ Unknown config attribute `prov.formats.bco.trace_timestamp` -- check config file: /home/runner/work/sarek/sarek/nextflow.config
-- Check '/home/runner/work/sarek/sarek/~/tests/e4f46d1b399e33a26fc15d8184f01365/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.2 is available - Please consider updating your version to it
Check failure on line 1 in Test pipeline
github-actions / JUnit Test Report
Test pipeline.Run with profile test | --save_output_as_bam | skip QC/recal/md
Assertion failed:
2 of 2 assertions failed
Raw output
Nextflow stdout:
N E X T F L O W ~ version 24.04.2
ERROR ~ Unknown config attribute `prov.formats.bco.trace_timestamp` -- check config file: /home/runner/work/sarek/sarek/nextflow.config
-- Check '/home/runner/work/sarek/sarek/~/tests/76962ab64d2144650253685a2ce5830a/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.2 is available - Please consider updating your version to it
Check failure on line 1 in Test pipeline when starting from markduplicates
github-actions / JUnit Test Report
Test pipeline when starting from markduplicates.Run with profile test | --input tests/csv/3.0/mapped_single_cram.csv --step markduplicates --tools null
Assertion failed:
2 of 2 assertions failed
Raw output
Nextflow stdout:
N E X T F L O W ~ version 24.04.2
ERROR ~ Unknown config attribute `prov.formats.bco.trace_timestamp` -- check config file: /home/runner/work/sarek/sarek/nextflow.config
-- Check '/home/runner/work/sarek/sarek/~/tests/e69f4866f6add74adb881e46a37eadfe/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.2 is available - Please consider updating your version to it
Check failure on line 1 in Test pipeline when starting from prepare recalibration
github-actions / JUnit Test Report
Test pipeline when starting from prepare recalibration.Run with profile test | --input tests/csv/3.0/mapped_single_cram.csv --step prepare_recalibration --skip_tools baserecalibrator --tools strelka
Assertion failed:
2 of 2 assertions failed
Raw output
Nextflow stdout:
N E X T F L O W ~ version 24.04.2
ERROR ~ Unknown config attribute `prov.formats.bco.trace_timestamp` -- check config file: /home/runner/work/sarek/sarek/nextflow.config
-- Check '/home/runner/work/sarek/sarek/~/tests/96840d4462214abb13f995d39dcb988b/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.2 is available - Please consider updating your version to it
Check failure on line 1 in Test pipeline
github-actions / JUnit Test Report
Test pipeline.Run with profile test | --input tests/csv/3.0/fastq_pair.csv
Assertion failed:
2 of 2 assertions failed
Raw output
Nextflow stdout:
N E X T F L O W ~ version 24.04.2
ERROR ~ Unknown config attribute `prov.formats.bco.trace_timestamp` -- check config file: /home/runner/work/sarek/sarek/nextflow.config
-- Check '/home/runner/work/sarek/sarek/~/tests/14ed1c6de97f743ae4153d1d9e2a1f0/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.2 is available - Please consider updating your version to it
Check failure on line 1 in Test pipeline
github-actions / JUnit Test Report
Test pipeline.Run with profile test | --tools strelka --only_paired_variant_calling
Assertion failed:
2 of 2 assertions failed
Raw output
Nextflow stdout:
N E X T F L O W ~ version 24.04.2
ERROR ~ Unknown config attribute `prov.formats.bco.trace_timestamp` -- check config file: /home/runner/work/sarek/sarek/nextflow.config
-- Check '/home/runner/work/sarek/sarek/~/tests/fa9ac3ed693ca54cacee2f6c2755132/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.2 is available - Please consider updating your version to it
Check failure on line 1 in Test pipeline
github-actions / JUnit Test Report
Test pipeline.Run with profile test | --tools manta,strelka | somatic
Assertion failed:
2 of 2 assertions failed
Raw output
Nextflow stdout:
N E X T F L O W ~ version 24.04.2
ERROR ~ Unknown config attribute `prov.formats.bco.trace_timestamp` -- check config file: /home/runner/work/sarek/sarek/nextflow.config
-- Check '/home/runner/work/sarek/sarek/~/tests/7bf95e035d07a296db4135640ce7bd60/meta/nextflow.log' file for details
Nextflow stderr:
Nextflow 24.10.2 is available - Please consider updating your version to it